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61.
An RNA-Seq strategy was used to obtain the complete set of protein-coding mitochondrial genes from two rodent taxa. Thanks to the next generation sequencing (NGS) 454 approach, we determined the complete mitochondrial DNA genome from Graphiurus kelleni (Mammalia: Rodentia: Gliridae) and partial mitogenome from Pedetes capensis (Pedetidae), and compared them with published rodent and outgroup mitogenomes. We finished the mitogenome sequencing by a series of amplicons using conserved PCR primers to fill the gaps corresponding to tRNA, rRNA and control regions. Phylogenetic analyses of the mitogenomes suggest a well-supported rodent phylogeny in agreement with nuclear gene trees. Pedetes groups with Anomalurus into the clade Anomaluromorpha, while Graphiurus branches within the squirrel-related clade. Moreover, Pedetes + Anomalurus branch with Castor into the mouse-related clade. Our study demonstrates the utility of NGS for obtaining new mitochondrial genomes as well as the importance of choosing adequate models of sequence evolution to infer the phylogeny of rodents. 相似文献
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Andrew E. Shaw Maxime Ratinier Sandro Filipe Nunes Kyriaki Nomikou Marco Caporale Matthew Golder Kathryn Allan Claude Hamers Pascal Hudelet Stéphan Zientara Emmanuel Breard Peter Mertens Massimo Palmarini 《Journal of virology》2013,87(1):543-557
Coinfection of a cell by two different strains of a segmented virus can give rise to a “reassortant” with phenotypic characteristics that might differ from those of the parental strains. Bluetongue virus (BTV) is a double-stranded RNA (dsRNA) segmented virus and the cause of bluetongue, a major infectious disease of livestock. BTV exists as at least 26 different serotypes (BTV-1 to BTV-26). Prompted by the isolation of a field reassortant between BTV-1 and BTV-8, we systematically characterized the process of BTV reassortment. Using a reverse genetics approach, our study clearly indicates that any BTV-1 or BTV-8 genome segment can be rescued in the heterologous “backbone.” To assess phenotypic variation as a result of reassortment, we examined viral growth kinetics and plaque sizes in in vitro experiments and virulence in an experimental mouse model of bluetongue disease. The monoreassortants generated had phenotypes that were very similar to those of the parental wild-type strains both in vitro and in vivo. Using a forward genetics approach in cells coinfected with BTV-1 and BTV-8, we have shown that reassortants between BTV-1 and BTV-8 are generated very readily. After only four passages in cell culture, we could not detect wild-type BTV-1 or BTV-8 in any of 140 isolated viral plaques. In addition, most of the isolated reassortants contained heterologous VP2 and VP5 structural proteins, while only 17% had homologous VP2 and VP5 proteins. Our study has shown that reassortment in BTV is very flexible, and there is no fundamental barrier to the reassortment of any genome segment. Given the propensity of BTV to reassort, it is increasingly important to have an alternative classification system for orbiviruses. 相似文献
64.
Emmanuel Adu-Gyamfi Smita P. Soni Yi Xue Michelle A. Digman Enrico Gratton Robert V. Stahelin 《The Journal of biological chemistry》2013,288(8):5779-5789
Ebola, a fatal virus in humans and non-human primates, has no Food and Drug Administration-approved vaccines or therapeutics. The virus from the Filoviridae family causes hemorrhagic fever, which rapidly progresses and in some cases has a fatality rate near 90%. The Ebola genome encodes seven genes, the most abundantly expressed of which is viral protein 40 (VP40), the major Ebola matrix protein that regulates assembly and egress of the virus. It is well established that VP40 assembles on the inner leaflet of the plasma membrane; however, the mechanistic details of plasma membrane association by VP40 are not well understood. In this study, we used an array of biophysical experiments and cellular assays along with mutagenesis of VP40 to investigate the role of membrane penetration in VP40 assembly and egress. Here we demonstrate that VP40 is able to penetrate specifically into the plasma membrane through an interface enriched in hydrophobic residues in its C-terminal domain. Mutagenesis of this hydrophobic region consisting of Leu213, Ile293, Leu295, and Val298 demonstrated that membrane penetration is critical to plasma membrane localization, VP40 oligomerization, and viral particle egress. Taken together, VP40 membrane penetration is an important step in the plasma membrane localization of the matrix protein where oligomerization and budding are defective in the absence of key hydrophobic interactions with the membrane. 相似文献
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Fabien Cormier Sébastien Faure Pierre Dubreuil Emmanuel Heumez Katia Beauchêne Stéphane Lafarge Sébastien Praud Jacques Le Gouis 《TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik》2013,126(12):3035-3048
Key message
By comparing 195 varieties in eight trials, this study assesses nitrogen use efficiency improvement in high and low nitrogen conditions in European winter wheat over the last 25 years.Abstract
In a context where European agriculture practices have to deal with environmental concerns and nitrogen (N) fertiliser cost, nitrogen use efficiency (NUE) has to be improved. This study assessed genetic progress in winter wheat (Triticum aestivum L.) NUE. Two hundred and twenty-five European elite varieties were tested in four environments under two levels of N. Global genetic progress was assessed on additive genetic values and on genotype × N interaction, covering 25 years of European breeding. To avoid sampling bias, quality, precocity and plant height were added as covariates in the analyses when needed. Genotype × environment interactions were highly significant for all the traits studied to such an extent that no additive genetic effect was detected on N uptake. Genotype × N interactions were significant for yield, grain protein content (GPC), N concentration in straw, N utilisation, and NUE. Grain yield improvement (+0.45 % year?1) was independent of the N treatment. GPC was stable, thus grain nitrogen yield was improved (+0.39 % year?1). Genetic progress on N harvest index (+0.12 % year?1) and on N concentration in straw (?0.52 % year?1) possibly revealed improvement in N remobilisation. There has been an improvement of NUE additive genetic value (+0.33 % year?1) linked to better N utilisation (+0.20 % year?1). Improved yield stability was detected as a significant improvement of NUE in low compared to high N conditions. The application of these results to breeding programs is discussed. 相似文献67.
Emmanuel A. Tzortzakakis 《Biologia》2013,68(5):918-921
A sample of clay loam vineyard soil, containing the nematode Xiphinema index, was divided into equal portions and stored in plastic bags. Nematodes were extracted immediately or remained in fridge for a short time or at room temperature for longer periods. The number of extracted nematodes did not differ significantly between treatments, indicating that X. index in soil samples collected for diagnostic purposes could remain viable for a period up to six months. Four other samples, of similar soil type, were collected from different vineyards and kept stored in plastic bags at room temperature. Variable periods of nematode survival recorded, ranging from less than two years in one sample, up to five years in another one. It is concluded that a long fallow period of at least five years may be required between successive grapevine crops to eliminate the nematode from clay loam soils. 相似文献
68.
Hyaenodontida are represented in Europe by three subfamilies: Proviverrinae, Arfianinae and Sinopaninae. Here, we review all the specimens of Arfianinae and Sinopaninae known to date in Europe and Asia. A new Galecyon species is erected: Galecyon gallus nov. sp. We discuss the taxonomic position of the two Asian hyaenodontidans Anthracoxyaena palustris and Arfia langebadreae; the genus Anthracoxyaena is synonymized with Arfia. The analysis of the European and Asian arfianines and sinopanines provides new data concerning the dispersals and faunal events that occurred during the Early Eocene in Laurasia. The Arfianinae and Sinopaninae appeared in Europe around the Paleocene/Eocene boundary (reference-level MP7). The sinopanines are widespread in Europe; they are known in Dormaal (Belgium, reference-locality of the level MP7), Rians, Soissons, Pourcy, Try, Le Quesnoy (France), and Abbey Wood (England). The analysis of the paleogeographic distribution of all Oxyaenodonta and Hyaenodontida at and after the MP7 supports the existence of two European provinces: the North Province and Mesogean Province. We show that the Arfianinae and Sinopaninae rapidly disappeared from Europe; they are unknown in Avenay (reference-locality of the level MP8+9) and younger localities. Their disappearance from Europe is synchronous with that of the Oxyaenodonta. These observations support the existence of a faunal turnover, which occurred between the reference-levels MP7 (Dormaal) and MP8+9 (Avenay). The hypothesis of a dispersal from Europe to North America during the Paleocene-Eocene transition for the Arfianinae and Sinopaninae is supported. Moreover, the study of Arfianinae supports a dispersal from Europe to Asia around the P/E boundary, followed by a short period of endemic evolution. However, our study does not support a close relationship between Arfia and the “Arfia-like South Asian Proviverrinae” (Kyawdawia, Indohyaenodon, Paratritemnodon and Yarshea). 相似文献
69.
Emmanuel Deau Yvonnick Loidreau Pascal Marchand Marie-Renée Nourrisson Nadège Loaëc Laurent Meijer Vincent Levacher Thierry Besson 《Bioorganic & medicinal chemistry letters》2013,23(24):6784-6788
The efficient synthesis of 7-substituted pyrido[2′,3′:4,5]furo[3,2-d]pyrimidin-4-amines and their N-aryl analogues is described. 3,5-Dibromopyridine was converted into 3-amino-6-bromofuro[3,2-b]pyridine-2-carbonitrile intermediate which was formylated with DMFDMA. Functionalization at position 7 of the tricyclic scaffold was accomplished, before or after cyclisation step, by palladium-catalyzed Suzuki–Miyaura cross-coupling while the pyrimidin-4-amines and N-aryl counterparts were synthesized by microwave-assisted formamide degradation and Dimroth rearrangement, respectively. The final products were evaluated for their potent inhibition of a series of five Ser/Thr kinases (CDK5/p25, CK1δ/ε, CLK1, DYRK1A, GSK3α/β). Compound 35 showed the best inhibitory activity with an IC50 value of 49 nM and proved to be specific to CLK1 among the panel of tested kinases. 相似文献
70.
Paolo Maiuri Emmanuel Terriac Perrine Paul-Gilloteaux Timothée Vignaud Krista McNally James Onuffer Kurt Thorn Phuong A. Nguyen Nefeli Georgoulia Daniel Soong Asier Jayo Nina Beil Jürgen Beneke Joleen Chooi Hong Lim Chloe Pei-Ying Sim Yeh-Shiu Chu Andrea Jiménez-Dalmaroni Manuel Théry 《Current biology : CB》2013,23(1):97